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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttaagggacctgggcattgtgggacggattgagagaaggcgggcactgtaacgtcagcggggaattctgaattcgcggtgtttaatttctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACGCAGAAAGTGTTCCATTTCCTAAACTTCCTCGTGAACGGCG

Basic information

species Zea mays
transcript GRMZM2G174286_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g39220.1 (Oryza sativa), 3'ss of exon 1
--attttaagggacctgggcattgtgggacggattgagagaaggcgggcactgtaacgtcagcggggaattctgaattcgcggtgtttaatttctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACGCAGAAAGTGTTCCATTTCCTAAACTTCCTCGTGAACGGCG
  |  ||  ||    |  | ||| |  || ||||     || |  |||   || | |||     |  |  |     ||   || | || ||||||||||||||||||||||||||||||||| || |||||||| || || |||||||| || || || |||||||||||||| |||||||||||||||||||
taaactttgggtgtttctgaatt-tctgatggatatcttgaggctgggtcatg-agcgttgtaagaaatctaaatttttttggggcttgatttctcttgtagGTCCAATTGATCAGAATCGAATGTAGGGTGCCCGAATACGGGTGGACAACACAAAAGGTGTTCCATTTCCTCAACTTCCTCGTGAACGGCG

upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ15891 (Selaginella moellendorffii), 3'ss of exon 1
attttaagggacctgggcattgtgggacggattgagagaaggcgggcactgtaacgtcagcggggaattctgaattcgcggtgtttaatt-tctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACGCAGAAAGTGTTCCATTTCCTAAACTTCCTCGTGAACGGCG
                                 |  ||   |  |   ||   | || ||| | |  | ||  ||      | ||   || | |||| ||| ||||| |  | |||||  |   | ||||||| |||||||| ||||| |||||||||||||||||| |||| || ||| | || || || |
---------------------------------gtaagttagttgattcttgtaagttagctgtgtttcct--atcgattttcttcctttgtttcttttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG

upper sequence: GRMZM2G174286_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ33253 (Selaginella moellendorffii), 3'ss of exon 1
attttaagggacctgggcattgtgggacggattgagagaaggcgggcactgtaacgtcagcggggaattctgaattcgcggtgtttaatttctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACGCAGAAAGTGTTCCATTTCCTAAACTTCCTCGTGAACGGCG
                                 |  ||   |  |   ||   | || ||| | |  | ||    |||     |||  || || |  ||| ||||| |  | |||||  |   | ||||||| |||||||| ||||| |||||||||||||||||| |||| || ||| | || || || |
---------------------------------gtaagttagttgattcttgtaagttagctgtgtttccta---tcg----attttcttcctttgttagATCCAACTCGTTAGAATACAAATCCGGGTGCCGGAGTATGGCTGGACAACGCAGAAAGTGTTCCATCTCCTCAATTTCTTTGTAAATGGAG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|67017793|gb|CO446542.1|CO446542
EST:     TCTTCCACGCGCTCGCCGTGCTCTACGGCATCGTCTCCGCCGTCGCGCTG                         GTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACG
genomic: TCTTCCACGCGCTCGCCGTGCTCTACGGCATCGTCTCCGCCGTCGCGCTGgtaagcaccc ... tctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcactgtaacgtcagcggggaattctgaattcgcggtgtttaatttctcttgtagGTCCAATTGATCAGAATCGAGTGCAGGGTGCCAGAGTATGGGTGGACGACGCAGAAAGTGTTCCATTTCCTAAACTTCCTCGTGAACGGCG
                                           tttctcttgt  CT-rich tract
                                    tgtttaattt  TA-rich tract